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<meta name="author" content="Yihui Xie, J. J. Allaire, Garrett Grolemund（著）" />
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<li><a href="./">R Markdown: The Definitive Guide</a></li>

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<li class="chapter" data-level="" data-path="index.html"><a href="index.html"><i class="fa fa-check"></i>前言</a><ul>
<li class="chapter" data-level="" data-path="how-to-read-this-book.html"><a href="how-to-read-this-book.html"><i class="fa fa-check"></i>How to read this book</a></li>
<li class="chapter" data-level="" data-path="structure-of-the-book.html"><a href="structure-of-the-book.html"><i class="fa fa-check"></i>Structure of the book</a></li>
<li class="chapter" data-level="" data-path="software-info.html"><a href="software-info.html"><i class="fa fa-check"></i>Software information and conventions</a></li>
<li class="chapter" data-level="" data-path="acknowledgments.html"><a href="acknowledgments.html"><i class="fa fa-check"></i>Acknowledgments</a></li>
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<li class="chapter" data-level="" data-path="author.html"><a href="author.html"><i class="fa fa-check"></i>About the Authors</a><ul>
<li class="chapter" data-level="" data-path="yihui-xie.html"><a href="yihui-xie.html"><i class="fa fa-check"></i>Yihui Xie</a></li>
<li class="chapter" data-level="" data-path="j-j-allaire.html"><a href="j-j-allaire.html"><i class="fa fa-check"></i>J.J. Allaire</a></li>
<li class="chapter" data-level="" data-path="garrett-grolemund.html"><a href="garrett-grolemund.html"><i class="fa fa-check"></i>Garrett Grolemund</a></li>
</ul></li>
<li class="part"><span><b>I Get Started</b></span></li>
<li class="chapter" data-level="1" data-path="installation.html"><a href="installation.html"><i class="fa fa-check"></i><b>1</b> Installation</a></li>
<li class="chapter" data-level="2" data-path="basics.html"><a href="basics.html"><i class="fa fa-check"></i><b>2</b> Basics</a><ul>
<li class="chapter" data-level="2.1" data-path="basics-examples.html"><a href="basics-examples.html"><i class="fa fa-check"></i><b>2.1</b> Example applications</a><ul>
<li class="chapter" data-level="2.1.1" data-path="basics-examples.html"><a href="basics-examples.html#airbnbs-knowledge-repository"><i class="fa fa-check"></i><b>2.1.1</b> Airbnb’s knowledge repository</a></li>
<li class="chapter" data-level="2.1.2" data-path="basics-examples.html"><a href="basics-examples.html#homework-assignments-on-rpubs"><i class="fa fa-check"></i><b>2.1.2</b> Homework assignments on RPubs</a></li>
<li class="chapter" data-level="2.1.3" data-path="basics-examples.html"><a href="basics-examples.html#personalized-mail"><i class="fa fa-check"></i><b>2.1.3</b> Personalized mail</a></li>
<li class="chapter" data-level="2.1.4" data-path="basics-examples.html"><a href="basics-examples.html#employer-health-benefits-survey"><i class="fa fa-check"></i><b>2.1.4</b> 2017 Employer Health Benefits Survey</a></li>
<li class="chapter" data-level="2.1.5" data-path="basics-examples.html"><a href="basics-examples.html#examples-journal"><i class="fa fa-check"></i><b>2.1.5</b> Journal articles</a></li>
<li class="chapter" data-level="2.1.6" data-path="basics-examples.html"><a href="basics-examples.html#dashboards-at-eelloo"><i class="fa fa-check"></i><b>2.1.6</b> Dashboards at eelloo</a></li>
<li class="chapter" data-level="2.1.7" data-path="basics-examples.html"><a href="basics-examples.html#examples-books"><i class="fa fa-check"></i><b>2.1.7</b> Books</a></li>
<li class="chapter" data-level="2.1.8" data-path="basics-examples.html"><a href="basics-examples.html#examples-websites"><i class="fa fa-check"></i><b>2.1.8</b> Websites</a></li>
</ul></li>
<li class="chapter" data-level="2.2" data-path="compile.html"><a href="compile.html"><i class="fa fa-check"></i><b>2.2</b> Compile an R Markdown document</a></li>
<li class="chapter" data-level="2.3" data-path="cheat-sheets.html"><a href="cheat-sheets.html"><i class="fa fa-check"></i><b>2.3</b> Cheat sheets</a></li>
<li class="chapter" data-level="2.4" data-path="output-formats.html"><a href="output-formats.html"><i class="fa fa-check"></i><b>2.4</b> Output formats</a></li>
<li class="chapter" data-level="2.5" data-path="markdown-syntax.html"><a href="markdown-syntax.html"><i class="fa fa-check"></i><b>2.5</b> Markdown syntax</a><ul>
<li class="chapter" data-level="2.5.1" data-path="markdown-syntax.html"><a href="markdown-syntax.html#inline-formatting"><i class="fa fa-check"></i><b>2.5.1</b> Inline formatting</a></li>
<li class="chapter" data-level="2.5.2" data-path="markdown-syntax.html"><a href="markdown-syntax.html#block-level-elements"><i class="fa fa-check"></i><b>2.5.2</b> Block-level elements</a></li>
<li class="chapter" data-level="2.5.3" data-path="markdown-syntax.html"><a href="markdown-syntax.html#math-expressions"><i class="fa fa-check"></i><b>2.5.3</b> Math expressions</a></li>
</ul></li>
<li class="chapter" data-level="2.6" data-path="r-code.html"><a href="r-code.html"><i class="fa fa-check"></i><b>2.6</b> R code chunks and inline R code</a><ul>
<li class="chapter" data-level="2.6.1" data-path="r-code.html"><a href="r-code.html#figures"><i class="fa fa-check"></i><b>2.6.1</b> Figures</a></li>
<li class="chapter" data-level="2.6.2" data-path="r-code.html"><a href="r-code.html#tables"><i class="fa fa-check"></i><b>2.6.2</b> Tables</a></li>
</ul></li>
<li class="chapter" data-level="2.7" data-path="language-engines.html"><a href="language-engines.html"><i class="fa fa-check"></i><b>2.7</b> Other language engines</a><ul>
<li class="chapter" data-level="2.7.1" data-path="language-engines.html"><a href="language-engines.html#python"><i class="fa fa-check"></i><b>2.7.1</b> Python</a></li>
<li class="chapter" data-level="2.7.2" data-path="language-engines.html"><a href="language-engines.html#shell-scripts"><i class="fa fa-check"></i><b>2.7.2</b> Shell scripts</a></li>
<li class="chapter" data-level="2.7.3" data-path="language-engines.html"><a href="language-engines.html#sql"><i class="fa fa-check"></i><b>2.7.3</b> SQL</a></li>
<li class="chapter" data-level="2.7.4" data-path="language-engines.html"><a href="language-engines.html#rcpp"><i class="fa fa-check"></i><b>2.7.4</b> Rcpp</a></li>
<li class="chapter" data-level="2.7.5" data-path="language-engines.html"><a href="language-engines.html#stan"><i class="fa fa-check"></i><b>2.7.5</b> Stan</a></li>
<li class="chapter" data-level="2.7.6" data-path="language-engines.html"><a href="language-engines.html#javascript-and-css"><i class="fa fa-check"></i><b>2.7.6</b> JavaScript and CSS</a></li>
<li class="chapter" data-level="2.7.7" data-path="language-engines.html"><a href="language-engines.html#julia"><i class="fa fa-check"></i><b>2.7.7</b> Julia</a></li>
<li class="chapter" data-level="2.7.8" data-path="language-engines.html"><a href="language-engines.html#c-and-fortran"><i class="fa fa-check"></i><b>2.7.8</b> C and Fortran</a></li>
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<li class="chapter" data-level="2.8" data-path="interactive-documents.html"><a href="interactive-documents.html"><i class="fa fa-check"></i><b>2.8</b> Interactive documents</a><ul>
<li class="chapter" data-level="2.8.1" data-path="interactive-documents.html"><a href="interactive-documents.html#intro-widgets"><i class="fa fa-check"></i><b>2.8.1</b> HTML widgets</a></li>
<li class="chapter" data-level="2.8.2" data-path="interactive-documents.html"><a href="interactive-documents.html#intro-shiny"><i class="fa fa-check"></i><b>2.8.2</b> Shiny documents</a></li>
</ul></li>
</ul></li>
<li class="part"><span><b>II Output Formats</b></span></li>
<li class="chapter" data-level="3" data-path="documents.html"><a href="documents.html"><i class="fa fa-check"></i><b>3</b> Documents</a><ul>
<li class="chapter" data-level="3.1" data-path="html-document.html"><a href="html-document.html"><i class="fa fa-check"></i><b>3.1</b> HTML document</a><ul>
<li class="chapter" data-level="3.1.1" data-path="html-document.html"><a href="html-document.html#table-of-contents"><i class="fa fa-check"></i><b>3.1.1</b> Table of contents</a></li>
<li class="chapter" data-level="3.1.2" data-path="html-document.html"><a href="html-document.html#section-numbering"><i class="fa fa-check"></i><b>3.1.2</b> Section numbering</a></li>
<li class="chapter" data-level="3.1.3" data-path="html-document.html"><a href="html-document.html#tabbed-sections"><i class="fa fa-check"></i><b>3.1.3</b> Tabbed sections</a></li>
<li class="chapter" data-level="3.1.4" data-path="html-document.html"><a href="html-document.html#appearance-and-style"><i class="fa fa-check"></i><b>3.1.4</b> Appearance and style</a></li>
<li class="chapter" data-level="3.1.5" data-path="html-document.html"><a href="html-document.html#figure-options"><i class="fa fa-check"></i><b>3.1.5</b> Figure options</a></li>
<li class="chapter" data-level="3.1.6" data-path="html-document.html"><a href="html-document.html#data-frame-printing"><i class="fa fa-check"></i><b>3.1.6</b> Data frame printing</a></li>
<li class="chapter" data-level="3.1.7" data-path="html-document.html"><a href="html-document.html#code-folding"><i class="fa fa-check"></i><b>3.1.7</b> Code folding</a></li>
<li class="chapter" data-level="3.1.8" data-path="html-document.html"><a href="html-document.html#mathjax-equations"><i class="fa fa-check"></i><b>3.1.8</b> MathJax equations</a></li>
<li class="chapter" data-level="3.1.9" data-path="html-document.html"><a href="html-document.html#document-dependencies"><i class="fa fa-check"></i><b>3.1.9</b> Document dependencies</a></li>
<li class="chapter" data-level="3.1.10" data-path="html-document.html"><a href="html-document.html#advanced-customization"><i class="fa fa-check"></i><b>3.1.10</b> Advanced customization</a></li>
<li class="chapter" data-level="3.1.11" data-path="html-document.html"><a href="html-document.html#shared-options"><i class="fa fa-check"></i><b>3.1.11</b> Shared options</a></li>
<li class="chapter" data-level="3.1.12" data-path="html-document.html"><a href="html-document.html#html-fragments"><i class="fa fa-check"></i><b>3.1.12</b> HTML fragments</a></li>
</ul></li>
<li class="chapter" data-level="3.2" data-path="notebook.html"><a href="notebook.html"><i class="fa fa-check"></i><b>3.2</b> Notebook</a><ul>
<li class="chapter" data-level="3.2.1" data-path="notebook.html"><a href="notebook.html#using-notebooks"><i class="fa fa-check"></i><b>3.2.1</b> Using Notebooks</a></li>
<li class="chapter" data-level="3.2.2" data-path="notebook.html"><a href="notebook.html#saving-and-sharing"><i class="fa fa-check"></i><b>3.2.2</b> Saving and sharing</a></li>
<li class="chapter" data-level="3.2.3" data-path="notebook.html"><a href="notebook.html#notebook-format"><i class="fa fa-check"></i><b>3.2.3</b> Notebook format</a></li>
</ul></li>
<li class="chapter" data-level="3.3" data-path="pdf-document.html"><a href="pdf-document.html"><i class="fa fa-check"></i><b>3.3</b> PDF document</a><ul>
<li class="chapter" data-level="3.3.1" data-path="pdf-document.html"><a href="pdf-document.html#table-of-contents-1"><i class="fa fa-check"></i><b>3.3.1</b> Table of contents</a></li>
<li class="chapter" data-level="3.3.2" data-path="pdf-document.html"><a href="pdf-document.html#figure-options-1"><i class="fa fa-check"></i><b>3.3.2</b> Figure options</a></li>
<li class="chapter" data-level="3.3.3" data-path="pdf-document.html"><a href="pdf-document.html#data-frame-printing-1"><i class="fa fa-check"></i><b>3.3.3</b> Data frame printing</a></li>
<li class="chapter" data-level="3.3.4" data-path="pdf-document.html"><a href="pdf-document.html#syntax-highlighting"><i class="fa fa-check"></i><b>3.3.4</b> Syntax highlighting</a></li>
<li class="chapter" data-level="3.3.5" data-path="pdf-document.html"><a href="pdf-document.html#latex-options"><i class="fa fa-check"></i><b>3.3.5</b> LaTeX options</a></li>
<li class="chapter" data-level="3.3.6" data-path="pdf-document.html"><a href="pdf-document.html#latex-packages-for-citations"><i class="fa fa-check"></i><b>3.3.6</b> LaTeX packages for citations</a></li>
<li class="chapter" data-level="3.3.7" data-path="pdf-document.html"><a href="pdf-document.html#advanced-customization-1"><i class="fa fa-check"></i><b>3.3.7</b> Advanced customization</a></li>
<li class="chapter" data-level="3.3.8" data-path="pdf-document.html"><a href="pdf-document.html#other-features"><i class="fa fa-check"></i><b>3.3.8</b> Other features</a></li>
</ul></li>
<li class="chapter" data-level="3.4" data-path="word-document.html"><a href="word-document.html"><i class="fa fa-check"></i><b>3.4</b> Word document</a><ul>
<li class="chapter" data-level="3.4.1" data-path="word-document.html"><a href="word-document.html#other-features-1"><i class="fa fa-check"></i><b>3.4.1</b> Other features</a></li>
</ul></li>
<li class="chapter" data-level="3.5" data-path="opendocument-text-document.html"><a href="opendocument-text-document.html"><i class="fa fa-check"></i><b>3.5</b> OpenDocument Text document</a><ul>
<li class="chapter" data-level="3.5.1" data-path="opendocument-text-document.html"><a href="opendocument-text-document.html#other-features-2"><i class="fa fa-check"></i><b>3.5.1</b> Other features</a></li>
</ul></li>
<li class="chapter" data-level="3.6" data-path="rich-text-format-document.html"><a href="rich-text-format-document.html"><i class="fa fa-check"></i><b>3.6</b> Rich Text Format document</a><ul>
<li class="chapter" data-level="3.6.1" data-path="rich-text-format-document.html"><a href="rich-text-format-document.html#other-features-3"><i class="fa fa-check"></i><b>3.6.1</b> Other features</a></li>
</ul></li>
<li class="chapter" data-level="3.7" data-path="markdown-document.html"><a href="markdown-document.html"><i class="fa fa-check"></i><b>3.7</b> Markdown document</a><ul>
<li class="chapter" data-level="3.7.1" data-path="markdown-document.html"><a href="markdown-document.html#markdown-variants"><i class="fa fa-check"></i><b>3.7.1</b> Markdown variants</a></li>
<li class="chapter" data-level="3.7.2" data-path="markdown-document.html"><a href="markdown-document.html#other-features-4"><i class="fa fa-check"></i><b>3.7.2</b> Other features</a></li>
</ul></li>
<li class="chapter" data-level="3.8" data-path="r-package-vignette.html"><a href="r-package-vignette.html"><i class="fa fa-check"></i><b>3.8</b> R package vignette</a></li>
</ul></li>
<li class="chapter" data-level="4" data-path="presentations.html"><a href="presentations.html"><i class="fa fa-check"></i><b>4</b> Presentations</a><ul>
<li class="chapter" data-level="4.1" data-path="ioslides-presentation.html"><a href="ioslides-presentation.html"><i class="fa fa-check"></i><b>4.1</b> ioslides presentation</a><ul>
<li class="chapter" data-level="4.1.1" data-path="ioslides-presentation.html"><a href="ioslides-presentation.html#display-modes"><i class="fa fa-check"></i><b>4.1.1</b> Display modes</a></li>
<li class="chapter" data-level="4.1.2" data-path="ioslides-presentation.html"><a href="ioslides-presentation.html#incremental-bullets"><i class="fa fa-check"></i><b>4.1.2</b> Incremental bullets</a></li>
<li class="chapter" data-level="4.1.3" data-path="ioslides-presentation.html"><a href="ioslides-presentation.html#visual-appearance"><i class="fa fa-check"></i><b>4.1.3</b> Visual appearance</a></li>
<li class="chapter" data-level="4.1.4" data-path="ioslides-presentation.html"><a href="ioslides-presentation.html#code-highlighting"><i class="fa fa-check"></i><b>4.1.4</b> Code highlighting</a></li>
<li class="chapter" data-level="4.1.5" data-path="ioslides-presentation.html"><a href="ioslides-presentation.html#adding-a-logo"><i class="fa fa-check"></i><b>4.1.5</b> Adding a logo</a></li>
<li class="chapter" data-level="4.1.6" data-path="ioslides-presentation.html"><a href="ioslides-presentation.html#tables-1"><i class="fa fa-check"></i><b>4.1.6</b> Tables</a></li>
<li class="chapter" data-level="4.1.7" data-path="ioslides-presentation.html"><a href="ioslides-presentation.html#advanced-layout"><i class="fa fa-check"></i><b>4.1.7</b> Advanced layout</a></li>
<li class="chapter" data-level="4.1.8" data-path="ioslides-presentation.html"><a href="ioslides-presentation.html#text-color"><i class="fa fa-check"></i><b>4.1.8</b> Text color</a></li>
<li class="chapter" data-level="4.1.9" data-path="ioslides-presentation.html"><a href="ioslides-presentation.html#presenter-mode"><i class="fa fa-check"></i><b>4.1.9</b> Presenter mode</a></li>
<li class="chapter" data-level="4.1.10" data-path="ioslides-presentation.html"><a href="ioslides-presentation.html#printing-and-pdf-output"><i class="fa fa-check"></i><b>4.1.10</b> Printing and PDF output</a></li>
<li class="chapter" data-level="4.1.11" data-path="ioslides-presentation.html"><a href="ioslides-presentation.html#custom-templates-2"><i class="fa fa-check"></i><b>4.1.11</b> Custom templates</a></li>
<li class="chapter" data-level="4.1.12" data-path="ioslides-presentation.html"><a href="ioslides-presentation.html#other-features-5"><i class="fa fa-check"></i><b>4.1.12</b> Other features</a></li>
</ul></li>
<li class="chapter" data-level="4.2" data-path="slidy-presentation.html"><a href="slidy-presentation.html"><i class="fa fa-check"></i><b>4.2</b> Slidy presentation</a><ul>
<li class="chapter" data-level="4.2.1" data-path="slidy-presentation.html"><a href="slidy-presentation.html#display-modes-1"><i class="fa fa-check"></i><b>4.2.1</b> Display modes</a></li>
<li class="chapter" data-level="4.2.2" data-path="slidy-presentation.html"><a href="slidy-presentation.html#text-size"><i class="fa fa-check"></i><b>4.2.2</b> Text size</a></li>
<li class="chapter" data-level="4.2.3" data-path="slidy-presentation.html"><a href="slidy-presentation.html#footer-elements"><i class="fa fa-check"></i><b>4.2.3</b> Footer elements</a></li>
<li class="chapter" data-level="4.2.4" data-path="slidy-presentation.html"><a href="slidy-presentation.html#other-features-6"><i class="fa fa-check"></i><b>4.2.4</b> Other features</a></li>
</ul></li>
<li class="chapter" data-level="4.3" data-path="beamer-presentation.html"><a href="beamer-presentation.html"><i class="fa fa-check"></i><b>4.3</b> Beamer presentation</a><ul>
<li class="chapter" data-level="4.3.1" data-path="beamer-presentation.html"><a href="beamer-presentation.html#themes"><i class="fa fa-check"></i><b>4.3.1</b> Themes</a></li>
<li class="chapter" data-level="4.3.2" data-path="beamer-presentation.html"><a href="beamer-presentation.html#slide-level"><i class="fa fa-check"></i><b>4.3.2</b> Slide level</a></li>
<li class="chapter" data-level="4.3.3" data-path="beamer-presentation.html"><a href="beamer-presentation.html#other-features-7"><i class="fa fa-check"></i><b>4.3.3</b> Other features</a></li>
</ul></li>
<li class="chapter" data-level="4.4" data-path="powerpoint-presentation.html"><a href="powerpoint-presentation.html"><i class="fa fa-check"></i><b>4.4</b> PowerPoint presentation</a><ul>
<li class="chapter" data-level="4.4.1" data-path="powerpoint-presentation.html"><a href="powerpoint-presentation.html#ppt-templates"><i class="fa fa-check"></i><b>4.4.1</b> Custom templates</a></li>
<li class="chapter" data-level="4.4.2" data-path="powerpoint-presentation.html"><a href="powerpoint-presentation.html#other-features-8"><i class="fa fa-check"></i><b>4.4.2</b> Other features</a></li>
</ul></li>
</ul></li>
<li class="part"><span><b>III Extensions</b></span></li>
<li class="chapter" data-level="5" data-path="dashboards.html"><a href="dashboards.html"><i class="fa fa-check"></i><b>5</b> Dashboards</a><ul>
<li class="chapter" data-level="5.1" data-path="layout.html"><a href="layout.html"><i class="fa fa-check"></i><b>5.1</b> Layout</a><ul>
<li class="chapter" data-level="5.1.1" data-path="layout.html"><a href="layout.html#row-based-layouts"><i class="fa fa-check"></i><b>5.1.1</b> Row-based layouts</a></li>
<li class="chapter" data-level="5.1.2" data-path="layout.html"><a href="layout.html#attributes-on-sections"><i class="fa fa-check"></i><b>5.1.2</b> Attributes on sections</a></li>
<li class="chapter" data-level="5.1.3" data-path="layout.html"><a href="layout.html#multiple-pages"><i class="fa fa-check"></i><b>5.1.3</b> Multiple pages</a></li>
<li class="chapter" data-level="5.1.4" data-path="layout.html"><a href="layout.html#story-boards"><i class="fa fa-check"></i><b>5.1.4</b> Story boards</a></li>
</ul></li>
<li class="chapter" data-level="5.2" data-path="dashboard-components.html"><a href="dashboard-components.html"><i class="fa fa-check"></i><b>5.2</b> Components</a><ul>
<li class="chapter" data-level="5.2.1" data-path="dashboard-components.html"><a href="dashboard-components.html#value-boxes"><i class="fa fa-check"></i><b>5.2.1</b> Value boxes</a></li>
<li class="chapter" data-level="5.2.2" data-path="dashboard-components.html"><a href="dashboard-components.html#gauges"><i class="fa fa-check"></i><b>5.2.2</b> Gauges</a></li>
<li class="chapter" data-level="5.2.3" data-path="dashboard-components.html"><a href="dashboard-components.html#text-annotations"><i class="fa fa-check"></i><b>5.2.3</b> Text annotations</a></li>
<li class="chapter" data-level="5.2.4" data-path="dashboard-components.html"><a href="dashboard-components.html#navigation-bar"><i class="fa fa-check"></i><b>5.2.4</b> Navigation bar</a></li>
</ul></li>
<li class="chapter" data-level="5.3" data-path="shiny.html"><a href="shiny.html"><i class="fa fa-check"></i><b>5.3</b> Shiny</a><ul>
<li class="chapter" data-level="5.3.1" data-path="shiny.html"><a href="shiny.html#getting-started"><i class="fa fa-check"></i><b>5.3.1</b> Getting started</a></li>
<li class="chapter" data-level="5.3.2" data-path="shiny.html"><a href="shiny.html#a-shiny-dashboard-example"><i class="fa fa-check"></i><b>5.3.2</b> A Shiny dashboard example</a></li>
<li class="chapter" data-level="5.3.3" data-path="shiny.html"><a href="shiny.html#input-sidebar"><i class="fa fa-check"></i><b>5.3.3</b> Input sidebar</a></li>
<li class="chapter" data-level="5.3.4" data-path="shiny.html"><a href="shiny.html#learning-more"><i class="fa fa-check"></i><b>5.3.4</b> Learning more</a></li>
</ul></li>
</ul></li>
<li class="chapter" data-level="6" data-path="tufte-handouts.html"><a href="tufte-handouts.html"><i class="fa fa-check"></i><b>6</b> Tufte Handouts</a><ul>
<li class="chapter" data-level="6.1" data-path="tufte-headings.html"><a href="tufte-headings.html"><i class="fa fa-check"></i><b>6.1</b> Headings</a></li>
<li class="chapter" data-level="6.2" data-path="tufte-figures.html"><a href="tufte-figures.html"><i class="fa fa-check"></i><b>6.2</b> Figures</a><ul>
<li class="chapter" data-level="6.2.1" data-path="tufte-figures.html"><a href="tufte-figures.html#margin-figures"><i class="fa fa-check"></i><b>6.2.1</b> Margin figures</a></li>
<li class="chapter" data-level="6.2.2" data-path="tufte-figures.html"><a href="tufte-figures.html#arbitrary-margin-content"><i class="fa fa-check"></i><b>6.2.2</b> Arbitrary margin content</a></li>
<li class="chapter" data-level="6.2.3" data-path="tufte-figures.html"><a href="tufte-figures.html#full-width-figures"><i class="fa fa-check"></i><b>6.2.3</b> Full-width figures</a></li>
<li class="chapter" data-level="6.2.4" data-path="tufte-figures.html"><a href="tufte-figures.html#main-column-figures"><i class="fa fa-check"></i><b>6.2.4</b> Main column figures</a></li>
</ul></li>
<li class="chapter" data-level="6.3" data-path="tufte-sidenotes.html"><a href="tufte-sidenotes.html"><i class="fa fa-check"></i><b>6.3</b> Sidenotes</a></li>
<li class="chapter" data-level="6.4" data-path="tufte-references.html"><a href="tufte-references.html"><i class="fa fa-check"></i><b>6.4</b> References</a></li>
<li class="chapter" data-level="6.5" data-path="tufte-tables.html"><a href="tufte-tables.html"><i class="fa fa-check"></i><b>6.5</b> Tables</a></li>
<li class="chapter" data-level="6.6" data-path="tufte-quotes.html"><a href="tufte-quotes.html"><i class="fa fa-check"></i><b>6.6</b> Block quotes</a></li>
<li class="chapter" data-level="6.7" data-path="tufte-responsiveness.html"><a href="tufte-responsiveness.html"><i class="fa fa-check"></i><b>6.7</b> Responsiveness</a></li>
<li class="chapter" data-level="6.8" data-path="tufte-sans.html"><a href="tufte-sans.html"><i class="fa fa-check"></i><b>6.8</b> Sans-serif fonts and epigraphs</a></li>
<li class="chapter" data-level="6.9" data-path="tufte-css.html"><a href="tufte-css.html"><i class="fa fa-check"></i><b>6.9</b> Customize CSS styles</a></li>
</ul></li>
<li class="chapter" data-level="7" data-path="xaringan.html"><a href="xaringan.html"><i class="fa fa-check"></i><b>7</b> xaringan Presentations</a><ul>
<li class="chapter" data-level="7.1" data-path="xaringan-start.html"><a href="xaringan-start.html"><i class="fa fa-check"></i><b>7.1</b> Get started</a></li>
<li class="chapter" data-level="7.2" data-path="xaringan-key.html"><a href="xaringan-key.html"><i class="fa fa-check"></i><b>7.2</b> Keyboard shortcuts</a></li>
<li class="chapter" data-level="7.3" data-path="xaringan-format.html"><a href="xaringan-format.html"><i class="fa fa-check"></i><b>7.3</b> Slide formatting</a><ul>
<li class="chapter" data-level="7.3.1" data-path="xaringan-format.html"><a href="xaringan-format.html#slides-and-properties"><i class="fa fa-check"></i><b>7.3.1</b> Slides and properties</a></li>
<li class="chapter" data-level="7.3.2" data-path="xaringan-format.html"><a href="xaringan-format.html#the-title-slide"><i class="fa fa-check"></i><b>7.3.2</b> The title slide</a></li>
<li class="chapter" data-level="7.3.3" data-path="xaringan-format.html"><a href="xaringan-format.html#content-classes"><i class="fa fa-check"></i><b>7.3.3</b> Content classes</a></li>
<li class="chapter" data-level="7.3.4" data-path="xaringan-format.html"><a href="xaringan-format.html#incremental-slides"><i class="fa fa-check"></i><b>7.3.4</b> Incremental slides</a></li>
<li class="chapter" data-level="7.3.5" data-path="xaringan-format.html"><a href="xaringan-format.html#xaringan-notes"><i class="fa fa-check"></i><b>7.3.5</b> Presenter notes</a></li>
<li class="chapter" data-level="7.3.6" data-path="xaringan-format.html"><a href="xaringan-format.html#yolo-true"><i class="fa fa-check"></i><b>7.3.6</b> yolo: true</a></li>
</ul></li>
<li class="chapter" data-level="7.4" data-path="xaringan-preview.html"><a href="xaringan-preview.html"><i class="fa fa-check"></i><b>7.4</b> Build and preview slides</a></li>
<li class="chapter" data-level="7.5" data-path="css-and-themes.html"><a href="css-and-themes.html"><i class="fa fa-check"></i><b>7.5</b> CSS and themes</a></li>
<li class="chapter" data-level="7.6" data-path="some-tips.html"><a href="some-tips.html"><i class="fa fa-check"></i><b>7.6</b> Some tips</a><ul>
<li class="chapter" data-level="7.6.1" data-path="some-tips.html"><a href="some-tips.html#autoplay-slides"><i class="fa fa-check"></i><b>7.6.1</b> Autoplay slides</a></li>
<li class="chapter" data-level="7.6.2" data-path="some-tips.html"><a href="some-tips.html#countdown-timer"><i class="fa fa-check"></i><b>7.6.2</b> Countdown timer</a></li>
<li class="chapter" data-level="7.6.3" data-path="some-tips.html"><a href="some-tips.html#highlight-code-lines"><i class="fa fa-check"></i><b>7.6.3</b> Highlight code lines</a></li>
<li class="chapter" data-level="7.6.4" data-path="some-tips.html"><a href="some-tips.html#working-offline"><i class="fa fa-check"></i><b>7.6.4</b> Working offline</a></li>
<li class="chapter" data-level="7.6.5" data-path="some-tips.html"><a href="some-tips.html#macros"><i class="fa fa-check"></i><b>7.6.5</b> Macros</a></li>
<li class="chapter" data-level="7.6.6" data-path="some-tips.html"><a href="some-tips.html#disadvantages"><i class="fa fa-check"></i><b>7.6.6</b> Disadvantages</a></li>
</ul></li>
</ul></li>
<li class="chapter" data-level="8" data-path="revealjs.html"><a href="revealjs.html"><i class="fa fa-check"></i><b>8</b> reveal.js Presentations</a><ul>
<li class="chapter" data-level="8.1" data-path="display-modes-2.html"><a href="display-modes-2.html"><i class="fa fa-check"></i><b>8.1</b> Display modes</a></li>
<li class="chapter" data-level="8.2" data-path="appearance-and-style-1.html"><a href="appearance-and-style-1.html"><i class="fa fa-check"></i><b>8.2</b> Appearance and style</a><ul>
<li class="chapter" data-level="8.2.1" data-path="appearance-and-style-1.html"><a href="appearance-and-style-1.html#smaller-text"><i class="fa fa-check"></i><b>8.2.1</b> Smaller text</a></li>
</ul></li>
<li class="chapter" data-level="8.3" data-path="slide-transitions.html"><a href="slide-transitions.html"><i class="fa fa-check"></i><b>8.3</b> Slide transitions</a></li>
<li class="chapter" data-level="8.4" data-path="slide-backgrounds.html"><a href="slide-backgrounds.html"><i class="fa fa-check"></i><b>8.4</b> Slide backgrounds</a></li>
<li class="chapter" data-level="8.5" data-path="d-presentations.html"><a href="d-presentations.html"><i class="fa fa-check"></i><b>8.5</b> 2-D presentations</a></li>
<li class="chapter" data-level="8.6" data-path="custom-css-1.html"><a href="custom-css-1.html"><i class="fa fa-check"></i><b>8.6</b> Custom CSS</a><ul>
<li class="chapter" data-level="8.6.1" data-path="custom-css-1.html"><a href="custom-css-1.html#slide-ids-and-classes"><i class="fa fa-check"></i><b>8.6.1</b> Slide IDs and classes</a></li>
<li class="chapter" data-level="8.6.2" data-path="custom-css-1.html"><a href="custom-css-1.html#styling-text-spans"><i class="fa fa-check"></i><b>8.6.2</b> Styling text spans</a></li>
</ul></li>
<li class="chapter" data-level="8.7" data-path="reveal-js-options.html"><a href="reveal-js-options.html"><i class="fa fa-check"></i><b>8.7</b> reveal.js options</a></li>
<li class="chapter" data-level="8.8" data-path="reveal-js-plugins.html"><a href="reveal-js-plugins.html"><i class="fa fa-check"></i><b>8.8</b> reveal.js plugins</a></li>
<li class="chapter" data-level="8.9" data-path="other-features-9.html"><a href="other-features-9.html"><i class="fa fa-check"></i><b>8.9</b> Other features</a></li>
</ul></li>
<li class="chapter" data-level="9" data-path="community.html"><a href="community.html"><i class="fa fa-check"></i><b>9</b> Community Formats</a><ul>
<li class="chapter" data-level="9.1" data-path="prettydoc.html"><a href="prettydoc.html"><i class="fa fa-check"></i><b>9.1</b> Lightweight Pretty HTML Documents</a><ul>
<li class="chapter" data-level="9.1.1" data-path="prettydoc.html"><a href="prettydoc.html#prettydoc-usage"><i class="fa fa-check"></i><b>9.1.1</b> Usage</a></li>
<li class="chapter" data-level="9.1.2" data-path="prettydoc.html"><a href="prettydoc.html#prettydoc-vignettes"><i class="fa fa-check"></i><b>9.1.2</b> Package vignettes</a></li>
</ul></li>
<li class="chapter" data-level="9.2" data-path="rmdformats.html"><a href="rmdformats.html"><i class="fa fa-check"></i><b>9.2</b> The rmdformats package</a></li>
<li class="chapter" data-level="9.3" data-path="shower-presentations.html"><a href="shower-presentations.html"><i class="fa fa-check"></i><b>9.3</b> Shower presentations</a></li>
</ul></li>
<li class="chapter" data-level="10" data-path="websites.html"><a href="websites.html"><i class="fa fa-check"></i><b>10</b> Websites</a><ul>
<li class="chapter" data-level="10.1" data-path="blogdown-start.html"><a href="blogdown-start.html"><i class="fa fa-check"></i><b>10.1</b> Get started</a></li>
<li class="chapter" data-level="10.2" data-path="blogdown-directory.html"><a href="blogdown-directory.html"><i class="fa fa-check"></i><b>10.2</b> The directory structure</a></li>
<li class="chapter" data-level="10.3" data-path="blogdown-deploy.html"><a href="blogdown-deploy.html"><i class="fa fa-check"></i><b>10.3</b> Deployment</a></li>
<li class="chapter" data-level="10.4" data-path="blogdown-other.html"><a href="blogdown-other.html"><i class="fa fa-check"></i><b>10.4</b> Other site generators</a></li>
<li class="chapter" data-level="10.5" data-path="rmarkdown-site.html"><a href="rmarkdown-site.html"><i class="fa fa-check"></i><b>10.5</b> rmarkdown’s site generator</a><ul>
<li class="chapter" data-level="10.5.1" data-path="rmarkdown-site.html"><a href="rmarkdown-site.html#a-simple-example"><i class="fa fa-check"></i><b>10.5.1</b> A simple example</a></li>
<li class="chapter" data-level="10.5.2" data-path="rmarkdown-site.html"><a href="rmarkdown-site.html#site-authoring"><i class="fa fa-check"></i><b>10.5.2</b> Site authoring</a></li>
<li class="chapter" data-level="10.5.3" data-path="rmarkdown-site.html"><a href="rmarkdown-site.html#common-elements"><i class="fa fa-check"></i><b>10.5.3</b> Common elements</a></li>
<li class="chapter" data-level="10.5.4" data-path="rmarkdown-site.html"><a href="rmarkdown-site.html#site-navigation"><i class="fa fa-check"></i><b>10.5.4</b> Site navigation</a></li>
<li class="chapter" data-level="10.5.5" data-path="rmarkdown-site.html"><a href="rmarkdown-site.html#html-generation"><i class="fa fa-check"></i><b>10.5.5</b> HTML generation</a></li>
<li class="chapter" data-level="10.5.6" data-path="rmarkdown-site.html"><a href="rmarkdown-site.html#site-configuration"><i class="fa fa-check"></i><b>10.5.6</b> Site configuration</a></li>
<li class="chapter" data-level="10.5.7" data-path="rmarkdown-site.html"><a href="rmarkdown-site.html#publishing-websites"><i class="fa fa-check"></i><b>10.5.7</b> Publishing websites</a></li>
<li class="chapter" data-level="10.5.8" data-path="rmarkdown-site.html"><a href="rmarkdown-site.html#additional-examples"><i class="fa fa-check"></i><b>10.5.8</b> Additional examples</a></li>
<li class="chapter" data-level="10.5.9" data-path="rmarkdown-site.html"><a href="rmarkdown-site.html#custom-site-generators"><i class="fa fa-check"></i><b>10.5.9</b> Custom site generators</a></li>
</ul></li>
</ul></li>
<li class="chapter" data-level="11" data-path="pkgdown.html"><a href="pkgdown.html"><i class="fa fa-check"></i><b>11</b> HTML Documentation for R Packages</a><ul>
<li class="chapter" data-level="11.1" data-path="pkgdown-start.html"><a href="pkgdown-start.html"><i class="fa fa-check"></i><b>11.1</b> Get started</a></li>
<li class="chapter" data-level="11.2" data-path="pkgdown-components.html"><a href="pkgdown-components.html"><i class="fa fa-check"></i><b>11.2</b> Components</a><ul>
<li class="chapter" data-level="11.2.1" data-path="pkgdown-components.html"><a href="pkgdown-components.html#home-page"><i class="fa fa-check"></i><b>11.2.1</b> Home page</a></li>
<li class="chapter" data-level="11.2.2" data-path="pkgdown-components.html"><a href="pkgdown-components.html#function-reference"><i class="fa fa-check"></i><b>11.2.2</b> Function reference</a></li>
<li class="chapter" data-level="11.2.3" data-path="pkgdown-components.html"><a href="pkgdown-components.html#articles"><i class="fa fa-check"></i><b>11.2.3</b> Articles</a></li>
<li class="chapter" data-level="11.2.4" data-path="pkgdown-components.html"><a href="pkgdown-components.html#news"><i class="fa fa-check"></i><b>11.2.4</b> News</a></li>
<li class="chapter" data-level="11.2.5" data-path="pkgdown-components.html"><a href="pkgdown-components.html#navigation-bar-1"><i class="fa fa-check"></i><b>11.2.5</b> Navigation bar</a></li>
</ul></li>
</ul></li>
<li class="chapter" data-level="12" data-path="books.html"><a href="books.html"><i class="fa fa-check"></i><b>12</b> Books</a><ul>
<li class="chapter" data-level="12.1" data-path="bookdown-start.html"><a href="bookdown-start.html"><i class="fa fa-check"></i><b>12.1</b> Get started</a></li>
<li class="chapter" data-level="12.2" data-path="bookdown-project.html"><a href="bookdown-project.html"><i class="fa fa-check"></i><b>12.2</b> Project structure</a><ul>
<li class="chapter" data-level="12.2.1" data-path="bookdown-project.html"><a href="bookdown-project.html#index-file"><i class="fa fa-check"></i><b>12.2.1</b> Index file</a></li>
<li class="chapter" data-level="12.2.2" data-path="bookdown-project.html"><a href="bookdown-project.html#rmd-files"><i class="fa fa-check"></i><b>12.2.2</b> Rmd files</a></li>
<li class="chapter" data-level="12.2.3" data-path="bookdown-project.html"><a href="bookdown-project.html#bookdown.yml"><i class="fa fa-check"></i><b>12.2.3</b> <code>_bookdown.yml</code></a></li>
<li class="chapter" data-level="12.2.4" data-path="bookdown-project.html"><a href="bookdown-project.html#output.yml"><i class="fa fa-check"></i><b>12.2.4</b> <code>_output.yml</code></a></li>
</ul></li>
<li class="chapter" data-level="12.3" data-path="bookdown-markdown.html"><a href="bookdown-markdown.html"><i class="fa fa-check"></i><b>12.3</b> Markdown extensions</a><ul>
<li class="chapter" data-level="12.3.1" data-path="bookdown-markdown.html"><a href="bookdown-markdown.html#equations"><i class="fa fa-check"></i><b>12.3.1</b> Number and reference equations</a></li>
<li class="chapter" data-level="12.3.2" data-path="bookdown-markdown.html"><a href="bookdown-markdown.html#theorems"><i class="fa fa-check"></i><b>12.3.2</b> Theorems and proofs</a></li>
<li class="chapter" data-level="12.3.3" data-path="bookdown-markdown.html"><a href="bookdown-markdown.html#special-headers"><i class="fa fa-check"></i><b>12.3.3</b> Special headers</a></li>
<li class="chapter" data-level="12.3.4" data-path="bookdown-markdown.html"><a href="bookdown-markdown.html#text-references"><i class="fa fa-check"></i><b>12.3.4</b> Text references</a></li>
<li class="chapter" data-level="12.3.5" data-path="bookdown-markdown.html"><a href="bookdown-markdown.html#cross-referencing"><i class="fa fa-check"></i><b>12.3.5</b> Cross referencing</a></li>
</ul></li>
<li class="chapter" data-level="12.4" data-path="bookdown-output.html"><a href="bookdown-output.html"><i class="fa fa-check"></i><b>12.4</b> Output Formats</a><ul>
<li class="chapter" data-level="12.4.1" data-path="bookdown-output.html"><a href="bookdown-output.html#html"><i class="fa fa-check"></i><b>12.4.1</b> HTML</a></li>
<li class="chapter" data-level="12.4.2" data-path="bookdown-output.html"><a href="bookdown-output.html#latexpdf"><i class="fa fa-check"></i><b>12.4.2</b> LaTeX/PDF</a></li>
<li class="chapter" data-level="12.4.3" data-path="bookdown-output.html"><a href="bookdown-output.html#e-books"><i class="fa fa-check"></i><b>12.4.3</b> E-books</a></li>
<li class="chapter" data-level="12.4.4" data-path="bookdown-output.html"><a href="bookdown-output.html#a-single-document"><i class="fa fa-check"></i><b>12.4.4</b> A single document</a></li>
</ul></li>
<li class="chapter" data-level="12.5" data-path="bookdown-edit.html"><a href="bookdown-edit.html"><i class="fa fa-check"></i><b>12.5</b> Editing</a><ul>
<li class="chapter" data-level="12.5.1" data-path="bookdown-edit.html"><a href="bookdown-edit.html#build-the-book"><i class="fa fa-check"></i><b>12.5.1</b> Build the book</a></li>
<li class="chapter" data-level="12.5.2" data-path="bookdown-edit.html"><a href="bookdown-edit.html#preview-a-chapter"><i class="fa fa-check"></i><b>12.5.2</b> Preview a chapter</a></li>
<li class="chapter" data-level="12.5.3" data-path="bookdown-edit.html"><a href="bookdown-edit.html#serve-the-book"><i class="fa fa-check"></i><b>12.5.3</b> Serve the book</a></li>
<li class="chapter" data-level="12.5.4" data-path="bookdown-edit.html"><a href="bookdown-edit.html#rstudio-addins"><i class="fa fa-check"></i><b>12.5.4</b> RStudio addins</a></li>
</ul></li>
<li class="chapter" data-level="12.6" data-path="bookdown-publish.html"><a href="bookdown-publish.html"><i class="fa fa-check"></i><b>12.6</b> Publishing</a><ul>
<li class="chapter" data-level="12.6.1" data-path="bookdown-publish.html"><a href="bookdown-publish.html#rstudio-connect"><i class="fa fa-check"></i><b>12.6.1</b> RStudio Connect</a></li>
<li class="chapter" data-level="12.6.2" data-path="bookdown-publish.html"><a href="bookdown-publish.html#other-services"><i class="fa fa-check"></i><b>12.6.2</b> Other services</a></li>
<li class="chapter" data-level="12.6.3" data-path="bookdown-publish.html"><a href="bookdown-publish.html#publishers"><i class="fa fa-check"></i><b>12.6.3</b> Publishers</a></li>
</ul></li>
</ul></li>
<li class="chapter" data-level="13" data-path="journals.html"><a href="journals.html"><i class="fa fa-check"></i><b>13</b> Journals</a><ul>
<li class="chapter" data-level="13.1" data-path="rticles-start.html"><a href="rticles-start.html"><i class="fa fa-check"></i><b>13.1</b> Get started</a></li>
<li class="chapter" data-level="13.2" data-path="rticles-templates.html"><a href="rticles-templates.html"><i class="fa fa-check"></i><b>13.2</b> rticles templates</a></li>
<li class="chapter" data-level="13.3" data-path="rticles-usage.html"><a href="rticles-usage.html"><i class="fa fa-check"></i><b>13.3</b> Using a template</a></li>
<li class="chapter" data-level="13.4" data-path="rticles-latex.html"><a href="rticles-latex.html"><i class="fa fa-check"></i><b>13.4</b> LaTeX content</a></li>
<li class="chapter" data-level="13.5" data-path="rticles-bookdown.html"><a href="rticles-bookdown.html"><i class="fa fa-check"></i><b>13.5</b> Linking with bookdown</a></li>
<li class="chapter" data-level="13.6" data-path="rticles-contrib.html"><a href="rticles-contrib.html"><i class="fa fa-check"></i><b>13.6</b> Contributing templates</a></li>
</ul></li>
<li class="chapter" data-level="14" data-path="learnr.html"><a href="learnr.html"><i class="fa fa-check"></i><b>14</b> Interactive Tutorials</a><ul>
<li class="chapter" data-level="14.1" data-path="learnr-start.html"><a href="learnr-start.html"><i class="fa fa-check"></i><b>14.1</b> Get started</a></li>
<li class="chapter" data-level="14.2" data-path="learnr-types.html"><a href="learnr-types.html"><i class="fa fa-check"></i><b>14.2</b> Tutorial types</a></li>
<li class="chapter" data-level="14.3" data-path="learnr-exercises.html"><a href="learnr-exercises.html"><i class="fa fa-check"></i><b>14.3</b> Exercises</a><ul>
<li class="chapter" data-level="14.3.1" data-path="learnr-exercises.html"><a href="learnr-exercises.html#solutions"><i class="fa fa-check"></i><b>14.3.1</b> Solutions</a></li>
<li class="chapter" data-level="14.3.2" data-path="learnr-exercises.html"><a href="learnr-exercises.html#hints"><i class="fa fa-check"></i><b>14.3.2</b> Hints</a></li>
</ul></li>
<li class="chapter" data-level="14.4" data-path="learnr-quiz.html"><a href="learnr-quiz.html"><i class="fa fa-check"></i><b>14.4</b> Quiz questions</a></li>
<li class="chapter" data-level="14.5" data-path="learnr-videos.html"><a href="learnr-videos.html"><i class="fa fa-check"></i><b>14.5</b> Videos</a></li>
<li class="chapter" data-level="14.6" data-path="learnr-shiny.html"><a href="learnr-shiny.html"><i class="fa fa-check"></i><b>14.6</b> Shiny components</a></li>
<li class="chapter" data-level="14.7" data-path="learnr-nav.html"><a href="learnr-nav.html"><i class="fa fa-check"></i><b>14.7</b> Navigation and progress tracking</a></li>
</ul></li>
<li class="part"><span><b>IV Other Topics</b></span></li>
<li class="chapter" data-level="15" data-path="parameterized-reports.html"><a href="parameterized-reports.html"><i class="fa fa-check"></i><b>15</b> Parameterized reports</a><ul>
<li class="chapter" data-level="15.1" data-path="params-declare.html"><a href="params-declare.html"><i class="fa fa-check"></i><b>15.1</b> Declaring parameters</a></li>
<li class="chapter" data-level="15.2" data-path="params-use.html"><a href="params-use.html"><i class="fa fa-check"></i><b>15.2</b> Using parameters</a></li>
<li class="chapter" data-level="15.3" data-path="params-knit.html"><a href="params-knit.html"><i class="fa fa-check"></i><b>15.3</b> Knitting with parameters</a><ul>
<li class="chapter" data-level="15.3.1" data-path="params-knit.html"><a href="params-knit.html#the-knit-button"><i class="fa fa-check"></i><b>15.3.1</b> The <code>Knit</code> button</a></li>
<li class="chapter" data-level="15.3.2" data-path="params-knit.html"><a href="params-knit.html#knit-with-custom-parameters"><i class="fa fa-check"></i><b>15.3.2</b> Knit with custom parameters</a></li>
<li class="chapter" data-level="15.3.3" data-path="params-knit.html"><a href="params-knit.html#the-interactive-user-interface"><i class="fa fa-check"></i><b>15.3.3</b> The interactive user interface</a></li>
</ul></li>
<li class="chapter" data-level="15.4" data-path="params-publish.html"><a href="params-publish.html"><i class="fa fa-check"></i><b>15.4</b> Publishing</a></li>
</ul></li>
<li class="chapter" data-level="16" data-path="html-widgets.html"><a href="html-widgets.html"><i class="fa fa-check"></i><b>16</b> HTML Widgets</a><ul>
<li class="chapter" data-level="16.1" data-path="htmlwidgets-overview.html"><a href="htmlwidgets-overview.html"><i class="fa fa-check"></i><b>16.1</b> Overview</a></li>
<li class="chapter" data-level="16.2" data-path="htmlwidgets-sigma.html"><a href="htmlwidgets-sigma.html"><i class="fa fa-check"></i><b>16.2</b> A widget example (sigma.js)</a><ul>
<li class="chapter" data-level="16.2.1" data-path="htmlwidgets-sigma.html"><a href="htmlwidgets-sigma.html#file-layout"><i class="fa fa-check"></i><b>16.2.1</b> File layout</a></li>
<li class="chapter" data-level="16.2.2" data-path="htmlwidgets-sigma.html"><a href="htmlwidgets-sigma.html#dependencies"><i class="fa fa-check"></i><b>16.2.2</b> Dependencies</a></li>
<li class="chapter" data-level="16.2.3" data-path="htmlwidgets-sigma.html"><a href="htmlwidgets-sigma.html#r-binding"><i class="fa fa-check"></i><b>16.2.3</b> R binding</a></li>
<li class="chapter" data-level="16.2.4" data-path="htmlwidgets-sigma.html"><a href="htmlwidgets-sigma.html#javascript-binding"><i class="fa fa-check"></i><b>16.2.4</b> JavaScript binding</a></li>
<li class="chapter" data-level="16.2.5" data-path="htmlwidgets-sigma.html"><a href="htmlwidgets-sigma.html#demo"><i class="fa fa-check"></i><b>16.2.5</b> Demo</a></li>
</ul></li>
<li class="chapter" data-level="16.3" data-path="htmlwidgets-create.html"><a href="htmlwidgets-create.html"><i class="fa fa-check"></i><b>16.3</b> Creating your own widgets</a><ul>
<li class="chapter" data-level="16.3.1" data-path="htmlwidgets-create.html"><a href="htmlwidgets-create.html#requirements"><i class="fa fa-check"></i><b>16.3.1</b> Requirements</a></li>
<li class="chapter" data-level="16.3.2" data-path="htmlwidgets-create.html"><a href="htmlwidgets-create.html#scaffolding"><i class="fa fa-check"></i><b>16.3.2</b> Scaffolding</a></li>
<li class="chapter" data-level="16.3.3" data-path="htmlwidgets-create.html"><a href="htmlwidgets-create.html#other-packages"><i class="fa fa-check"></i><b>16.3.3</b> Other packages</a></li>
</ul></li>
<li class="chapter" data-level="16.4" data-path="htmlwidgets-size.html"><a href="htmlwidgets-size.html"><i class="fa fa-check"></i><b>16.4</b> Widget sizing</a><ul>
<li class="chapter" data-level="16.4.1" data-path="htmlwidgets-size.html"><a href="htmlwidgets-size.html#specifying-a-sizing-policy"><i class="fa fa-check"></i><b>16.4.1</b> Specifying a sizing policy</a></li>
<li class="chapter" data-level="16.4.2" data-path="htmlwidgets-size.html"><a href="htmlwidgets-size.html#javascript-resize-method"><i class="fa fa-check"></i><b>16.4.2</b> JavaScript resize method</a></li>
</ul></li>
<li class="chapter" data-level="16.5" data-path="htmlwidgets-advanced.html"><a href="htmlwidgets-advanced.html"><i class="fa fa-check"></i><b>16.5</b> Advanced topics</a><ul>
<li class="chapter" data-level="16.5.1" data-path="htmlwidgets-advanced.html"><a href="htmlwidgets-advanced.html#data-transformation"><i class="fa fa-check"></i><b>16.5.1</b> Data transformation</a></li>
<li class="chapter" data-level="16.5.2" data-path="htmlwidgets-advanced.html"><a href="htmlwidgets-advanced.html#passing-javascript-functions"><i class="fa fa-check"></i><b>16.5.2</b> Passing JavaScript functions</a></li>
<li class="chapter" data-level="16.5.3" data-path="htmlwidgets-advanced.html"><a href="htmlwidgets-advanced.html#custom-widget-html"><i class="fa fa-check"></i><b>16.5.3</b> Custom widget HTML</a></li>
<li class="chapter" data-level="16.5.4" data-path="htmlwidgets-advanced.html"><a href="htmlwidgets-advanced.html#create-a-widget-without-an-r-package"><i class="fa fa-check"></i><b>16.5.4</b> Create a widget without an R package</a></li>
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<li class="chapter" data-level="17" data-path="document-templates.html"><a href="document-templates.html"><i class="fa fa-check"></i><b>17</b> Document Templates</a><ul>
<li class="chapter" data-level="17.1" data-path="template-structure.html"><a href="template-structure.html"><i class="fa fa-check"></i><b>17.1</b> Template structure</a></li>
<li class="chapter" data-level="17.2" data-path="template-support.html"><a href="template-support.html"><i class="fa fa-check"></i><b>17.2</b> Supporting files</a></li>
<li class="chapter" data-level="17.3" data-path="template-pandoc.html"><a href="template-pandoc.html"><i class="fa fa-check"></i><b>17.3</b> Custom Pandoc templates</a></li>
<li class="chapter" data-level="17.4" data-path="template-share.html"><a href="template-share.html"><i class="fa fa-check"></i><b>17.4</b> Sharing your templates</a></li>
</ul></li>
<li class="chapter" data-level="18" data-path="new-formats.html"><a href="new-formats.html"><i class="fa fa-check"></i><b>18</b> Creating New Formats</a><ul>
<li class="chapter" data-level="18.1" data-path="format-derive.html"><a href="format-derive.html"><i class="fa fa-check"></i><b>18.1</b> Deriving from built-in formats</a></li>
<li class="chapter" data-level="18.2" data-path="format-custom.html"><a href="format-custom.html"><i class="fa fa-check"></i><b>18.2</b> Fully custom formats</a></li>
<li class="chapter" data-level="18.3" data-path="format-use.html"><a href="format-use.html"><i class="fa fa-check"></i><b>18.3</b> Using a new format</a></li>
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<li class="chapter" data-level="19" data-path="shiny-documents.html"><a href="shiny-documents.html"><i class="fa fa-check"></i><b>19</b> Shiny Documents</a><ul>
<li class="chapter" data-level="19.1" data-path="shiny-start.html"><a href="shiny-start.html"><i class="fa fa-check"></i><b>19.1</b> Getting started</a></li>
<li class="chapter" data-level="19.2" data-path="shiny-deploy.html"><a href="shiny-deploy.html"><i class="fa fa-check"></i><b>19.2</b> Deployment</a><ul>
<li class="chapter" data-level="19.2.1" data-path="shiny-deploy.html"><a href="shiny-deploy.html#shinyapps.io"><i class="fa fa-check"></i><b>19.2.1</b> ShinyApps.io</a></li>
<li class="chapter" data-level="19.2.2" data-path="shiny-deploy.html"><a href="shiny-deploy.html#shiny-server-rstudio-connect"><i class="fa fa-check"></i><b>19.2.2</b> Shiny Server / RStudio Connect</a></li>
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<li class="chapter" data-level="19.3" data-path="shiny-embedded.html"><a href="shiny-embedded.html"><i class="fa fa-check"></i><b>19.3</b> Embedded Shiny apps</a><ul>
<li class="chapter" data-level="19.3.1" data-path="shiny-embedded.html"><a href="shiny-embedded.html#shiny-embed-inline"><i class="fa fa-check"></i><b>19.3.1</b> Inline applications</a></li>
<li class="chapter" data-level="19.3.2" data-path="shiny-embedded.html"><a href="shiny-embedded.html#external-applications"><i class="fa fa-check"></i><b>19.3.2</b> External applications</a></li>
</ul></li>
<li class="chapter" data-level="19.4" data-path="shiny-widgets.html"><a href="shiny-widgets.html"><i class="fa fa-check"></i><b>19.4</b> Shiny widgets</a><ul>
<li class="chapter" data-level="19.4.1" data-path="shiny-widgets.html"><a href="shiny-widgets.html#the-shinyapp-function"><i class="fa fa-check"></i><b>19.4.1</b> The <code>shinyApp()</code> function</a></li>
<li class="chapter" data-level="19.4.2" data-path="shiny-widgets.html"><a href="shiny-widgets.html#example-k-means-clustering"><i class="fa fa-check"></i><b>19.4.2</b> Example: k-Means clustering</a></li>
<li class="chapter" data-level="19.4.3" data-path="shiny-widgets.html"><a href="shiny-widgets.html#widget-size-and-layout"><i class="fa fa-check"></i><b>19.4.3</b> Widget size and layout</a></li>
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<li class="chapter" data-level="19.5" data-path="shiny-multiple.html"><a href="shiny-multiple.html"><i class="fa fa-check"></i><b>19.5</b> Multiple pages</a></li>
<li class="chapter" data-level="19.6" data-path="shiny-delay.html"><a href="shiny-delay.html"><i class="fa fa-check"></i><b>19.6</b> Delayed rendering</a></li>
<li class="chapter" data-level="19.7" data-path="shiny-args.html"><a href="shiny-args.html"><i class="fa fa-check"></i><b>19.7</b> Output arguments for render functions</a><ul>
<li class="chapter" data-level="19.7.1" data-path="shiny-args.html"><a href="shiny-args.html#a-caveat"><i class="fa fa-check"></i><b>19.7.1</b> A caveat</a></li>
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<div id="htmlwidgets-sigma" class="section level2">
<h2><span class="header-section-number">16.2</span> A widget example (sigma.js)</h2>
<p>To start with, we will walk through the creation of a simple widget that wraps the <a href="http://sigmajs.org">sigma.js</a> graph visualization library. When we are done, we will be able to use it to display interactive visualizations of <a href="http://gexf.net">GEXF</a> (Graph Exchange XML Format) data files. For example (see Figure <a href="htmlwidgets-sigma.html#fig:sigma">16.1</a> for the output, which is interactive if you are reading the HTML version of this book):</p>
<div class="sourceCode" id="cb309"><pre class="sourceCode r"><code class="sourceCode r"><a class="sourceLine" id="cb309-1" data-line-number="1"><span class="kw">library</span>(sigma)</a>
<a class="sourceLine" id="cb309-2" data-line-number="2">d =<span class="st"> </span><span class="kw">system.file</span>(<span class="st">&quot;examples/ediaspora.gexf.xml&quot;</span>, <span class="dt">package =</span> <span class="st">&quot;sigma&quot;</span>)</a>
<a class="sourceLine" id="cb309-3" data-line-number="3"><span class="kw">sigma</span>(d)</a></code></pre></div>
<div class="figure"><span id="fig:sigma"></span>
<div id="htmlwidget-7c96d6b54628cb5af90a" style="width:100%;height:480px;" class="sigma html-widget"></div>
<script type="application/json" data-for="htmlwidget-7c96d6b54628cb5af90a">{"x":{"data":"<?xml version=\"1.0\" encoding=\"UTF-8\"?>\n<gexf xmlns=\"http://www.gexf.net/1.2draft\" version=\"1.2\" xmlns:viz=\"http://www.gexf.net/1.2draft/viz\" xmlns:xsi=\"http://www.w3.org/2001/XMLSchema-instance\" xsi:schemaLocation=\"http://www.gexf.net/1.2draft http://www.gexf.net/1.2draft/gexf.xsd\">\n  <meta lastmodifieddate=\"2014-06-26\">\n    <creator>Gephi 0.8.1<\/creator>\n    <description><\/description>\n  <\/meta>\n  <graph defaultedgetype=\"directed\" mode=\"static\">\n    <attributes class=\"node\" mode=\"static\">\n      <attribute id=\"adb_id\" title=\"db_id\" type=\"integer\"><\/attribute>\n      <attribute id=\"aurl\" title=\"url\" type=\"string\"><\/attribute>\n      <attribute id=\"adesc_01\" title=\"desc_01\" type=\"string\"><\/attribute>\n      <attribute id=\"atype\" title=\"type\" type=\"string\"><\/attribute>\n      <attribute id=\"acategory\" title=\"Category\" 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<attvalues><\/attvalues>\n      <\/edge>\n      <edge source=\"151\" target=\"113\">\n        <attvalues><\/attvalues>\n      <\/edge>\n      <edge source=\"151\" target=\"138\">\n        <attvalues><\/attvalues>\n      <\/edge>\n      <edge source=\"155\" target=\"120\">\n        <attvalues><\/attvalues>\n      <\/edge>\n    <\/edges>\n  <\/graph>\n<\/gexf>","settings":{"drawEdges":true,"drawNodes":true}},"evals":[],"jsHooks":[]}</script>
<p class="caption">
图 16.1: A graph generated using the sigma.js library and the sigma package.
</p>
</div>
<p>There is remarkably little code required to create this binding. Next we will go through all of the components step by step. Then we will describe how you can create your own widgets, including automatically generating basic scaffolding for all of the core components.</p>
<div id="file-layout" class="section level3">
<h3><span class="header-section-number">16.2.1</span> File layout</h3>
<p>Let’s assume that our widget is named <strong>sigma</strong> and is located within an R package of the same name. Our JavaScript binding source code file is named sigma.js. Since our widget will read GEXF data files, we will also need to include both the base <code>sigma.min.js</code> library and its GEXF plugin. Here are the files that we will add to the package:</p>
<div class="sourceCode" id="cb310"><pre class="sourceCode markdown"><code class="sourceCode markdown"><a class="sourceLine" id="cb310-1" data-line-number="1">R/</a>
<a class="sourceLine" id="cb310-2" data-line-number="2">| sigma.R</a>
<a class="sourceLine" id="cb310-3" data-line-number="3"></a>
<a class="sourceLine" id="cb310-4" data-line-number="4">inst/</a>
<a class="sourceLine" id="cb310-5" data-line-number="5">|-- htmlwidgets/</a>
<a class="sourceLine" id="cb310-6" data-line-number="6">|   |-- sigma.js</a>
<a class="sourceLine" id="cb310-7" data-line-number="7">|   |-- sigma.yaml</a>
<a class="sourceLine" id="cb310-8" data-line-number="8">|   |-- lib/</a>
<a class="sourceLine" id="cb310-9" data-line-number="9">|   |   |-- sigma-1.0.3/</a>
<a class="sourceLine" id="cb310-10" data-line-number="10">|   |   |   |-- sigma.min.js</a>
<a class="sourceLine" id="cb310-11" data-line-number="11">|   |   |   |-- plugins/</a>
<a class="sourceLine" id="cb310-12" data-line-number="12">|   |   |   |   |-- sigma.parsers.gexf.min.js</a></code></pre></div>
<p>Note the convention that the JavaScript, YAML, and other dependencies are all contained within the <code>inst/htmlwidgets</code> directory, which will subsequently be installed into a package sub-directory named <code>htmlwidgets</code>.</p>
</div>
<div id="dependencies" class="section level3">
<h3><span class="header-section-number">16.2.2</span> Dependencies</h3>
<p>Dependencies are the JavaScript and CSS assets used by a widget, included within the <code>inst/htmlwidgets/lib</code> directory. They are specified using a YAML configuration file that uses the name of the widget as its base filename. Here is what our <strong>sigma.yaml</strong> file looks like:</p>
<div class="sourceCode" id="cb311"><pre class="sourceCode yaml"><code class="sourceCode yaml"><a class="sourceLine" id="cb311-1" data-line-number="1"><span class="fu">dependencies:</span></a>
<a class="sourceLine" id="cb311-2" data-line-number="2">  <span class="kw">-</span> <span class="fu">name:</span><span class="at"> sigma</span></a>
<a class="sourceLine" id="cb311-3" data-line-number="3">    <span class="fu">version:</span><span class="at"> 1.0.3</span></a>
<a class="sourceLine" id="cb311-4" data-line-number="4">    <span class="fu">src:</span><span class="at"> htmlwidgets/lib/sigma-1.0.3</span></a>
<a class="sourceLine" id="cb311-5" data-line-number="5">    <span class="fu">script:</span></a>
<a class="sourceLine" id="cb311-6" data-line-number="6">      <span class="kw">-</span> sigma.min.js</a>
<a class="sourceLine" id="cb311-7" data-line-number="7">      <span class="kw">-</span> plugins/sigma.parsers.gexf.min.js</a></code></pre></div>
<p>The dependency <code>src</code> specification refers to the directory that contains the library, and <code>script</code> refers to specific JavaScript files. If your library contains multiple JavaScript files specify each one on a line beginning with <code>-</code> as shown above. You can also add <code>stylesheet</code> entries, and even <code>meta</code> or <code>head</code> entries. Multiple dependencies may be specified in one YAML file. See the documentation on the <code>htmlDependency()</code> function in the <strong>htmltools</strong> package for additional details.</p>
</div>
<div id="r-binding" class="section level3">
<h3><span class="header-section-number">16.2.3</span> R binding</h3>
<p>We need to provide users with an R function that invokes our widget. Typically this function will accept input data as well as various options that control the widget’s display. Here is the R function for the <code>sigma</code> widget:</p>
<div class="sourceCode" id="cb312"><pre class="sourceCode r"><code class="sourceCode r"><a class="sourceLine" id="cb312-1" data-line-number="1"><span class="co">#&#39; @import htmlwidgets</span></a>
<a class="sourceLine" id="cb312-2" data-line-number="2"><span class="co">#&#39; @export</span></a>
<a class="sourceLine" id="cb312-3" data-line-number="3">sigma =<span class="st"> </span><span class="cf">function</span>(</a>
<a class="sourceLine" id="cb312-4" data-line-number="4">  gexf, <span class="dt">drawEdges =</span> <span class="ot">TRUE</span>, <span class="dt">drawNodes =</span> <span class="ot">TRUE</span>, <span class="dt">width =</span> <span class="ot">NULL</span>,</a>
<a class="sourceLine" id="cb312-5" data-line-number="5">  <span class="dt">height =</span> <span class="ot">NULL</span></a>
<a class="sourceLine" id="cb312-6" data-line-number="6">) {</a>
<a class="sourceLine" id="cb312-7" data-line-number="7"></a>
<a class="sourceLine" id="cb312-8" data-line-number="8">  <span class="co"># read the gexf file</span></a>
<a class="sourceLine" id="cb312-9" data-line-number="9">  data =<span class="st"> </span><span class="kw">paste</span>(<span class="kw">readLines</span>(gexf), <span class="dt">collapse =</span> <span class="st">&quot;</span><span class="ch">\n</span><span class="st">&quot;</span>)</a>
<a class="sourceLine" id="cb312-10" data-line-number="10"></a>
<a class="sourceLine" id="cb312-11" data-line-number="11">  <span class="co"># create a list that contains the settings</span></a>
<a class="sourceLine" id="cb312-12" data-line-number="12">  settings =<span class="st"> </span><span class="kw">list</span>(<span class="dt">drawEdges =</span> drawEdges, <span class="dt">drawNodes =</span> drawNodes)</a>
<a class="sourceLine" id="cb312-13" data-line-number="13"></a>
<a class="sourceLine" id="cb312-14" data-line-number="14">  <span class="co"># pass the data and settings using &#39;x&#39;</span></a>
<a class="sourceLine" id="cb312-15" data-line-number="15">  x =<span class="st"> </span><span class="kw">list</span>(<span class="dt">data =</span> data, <span class="dt">settings =</span> settings)</a>
<a class="sourceLine" id="cb312-16" data-line-number="16"></a>
<a class="sourceLine" id="cb312-17" data-line-number="17">  <span class="co"># create the widget</span></a>
<a class="sourceLine" id="cb312-18" data-line-number="18">  htmlwidgets<span class="op">::</span><span class="kw">createWidget</span>(</a>
<a class="sourceLine" id="cb312-19" data-line-number="19">    <span class="st">&quot;sigma&quot;</span>, x, <span class="dt">width =</span> width, <span class="dt">height =</span> height</a>
<a class="sourceLine" id="cb312-20" data-line-number="20">  )</a>
<a class="sourceLine" id="cb312-21" data-line-number="21">}</a></code></pre></div>
<p>The function takes two classes of input: the GEXF data file to render, and some additional settings that control how it is rendered. This input is collected into a list named <code>x</code>, which is then passed on to the <code>htmlwidgets::createWidget()</code> function. This <code>x</code> variable will subsequently be made available to the JavaScript binding for <code>sigma</code> (to be described in the next section). Any width or height parameter specified is also forwarded to the widget (widgets size themselves automatically by default, so typically do not require an explicit width or height).</p>
<p>We want our sigma widget to also work in Shiny applications, so we add the following boilerplate Shiny output and render functions (these are always the same for all widgets):</p>
<div class="sourceCode" id="cb313"><pre class="sourceCode r"><code class="sourceCode r"><a class="sourceLine" id="cb313-1" data-line-number="1"><span class="co">#&#39; @export</span></a>
<a class="sourceLine" id="cb313-2" data-line-number="2">sigmaOutput =<span class="st"> </span><span class="cf">function</span>(outputId, <span class="dt">width =</span> <span class="st">&quot;100%&quot;</span>, <span class="dt">height =</span> <span class="st">&quot;400px&quot;</span>) {</a>
<a class="sourceLine" id="cb313-3" data-line-number="3">  htmlwidgets<span class="op">::</span><span class="kw">shinyWidgetOutput</span>(</a>
<a class="sourceLine" id="cb313-4" data-line-number="4">    outputId, <span class="st">&quot;sigma&quot;</span>, width, height, <span class="dt">package =</span> <span class="st">&quot;sigma&quot;</span></a>
<a class="sourceLine" id="cb313-5" data-line-number="5">  )</a>
<a class="sourceLine" id="cb313-6" data-line-number="6">}</a>
<a class="sourceLine" id="cb313-7" data-line-number="7"><span class="co">#&#39; @export</span></a>
<a class="sourceLine" id="cb313-8" data-line-number="8">renderSigma =<span class="st"> </span><span class="cf">function</span>(expr, <span class="dt">env =</span> <span class="kw">parent.frame</span>(), <span class="dt">quoted =</span> <span class="ot">FALSE</span>) {</a>
<a class="sourceLine" id="cb313-9" data-line-number="9">  <span class="cf">if</span> (<span class="op">!</span>quoted) { expr =<span class="st"> </span><span class="kw">substitute</span>(expr) } <span class="co"># force quoted</span></a>
<a class="sourceLine" id="cb313-10" data-line-number="10">  htmlwidgets<span class="op">::</span><span class="kw">shinyRenderWidget</span>(</a>
<a class="sourceLine" id="cb313-11" data-line-number="11">    expr, sigmaOutput, env, <span class="dt">quoted =</span> <span class="ot">TRUE</span></a>
<a class="sourceLine" id="cb313-12" data-line-number="12">  )</a>
<a class="sourceLine" id="cb313-13" data-line-number="13">}</a></code></pre></div>
</div>
<div id="javascript-binding" class="section level3">
<h3><span class="header-section-number">16.2.4</span> JavaScript binding</h3>
<p>The third piece in the puzzle is the JavaScript required to activate the widget. By convention, we will define our JavaScript binding in the file <code>inst/htmlwidgets/sigma.js</code>. Here is the full source code of the binding:</p>
<div class="sourceCode" id="cb314"><pre class="sourceCode js"><code class="sourceCode javascript"><a class="sourceLine" id="cb314-1" data-line-number="1"><span class="va">HTMLWidgets</span>.<span class="at">widget</span>(<span class="op">{</span></a>
<a class="sourceLine" id="cb314-2" data-line-number="2"></a>
<a class="sourceLine" id="cb314-3" data-line-number="3">  <span class="dt">name</span><span class="op">:</span> <span class="st">&quot;sigma&quot;</span><span class="op">,</span></a>
<a class="sourceLine" id="cb314-4" data-line-number="4"></a>
<a class="sourceLine" id="cb314-5" data-line-number="5">  <span class="dt">type</span><span class="op">:</span> <span class="st">&quot;output&quot;</span><span class="op">,</span></a>
<a class="sourceLine" id="cb314-6" data-line-number="6"></a>
<a class="sourceLine" id="cb314-7" data-line-number="7">  <span class="dt">factory</span><span class="op">:</span> <span class="kw">function</span>(el<span class="op">,</span> width<span class="op">,</span> height) <span class="op">{</span></a>
<a class="sourceLine" id="cb314-8" data-line-number="8"></a>
<a class="sourceLine" id="cb314-9" data-line-number="9">    <span class="co">// create our sigma object and bind it to the element</span></a>
<a class="sourceLine" id="cb314-10" data-line-number="10">    <span class="kw">var</span> sig <span class="op">=</span> <span class="kw">new</span> <span class="at">sigma</span>(<span class="va">el</span>.<span class="at">id</span>)<span class="op">;</span></a>
<a class="sourceLine" id="cb314-11" data-line-number="11"></a>
<a class="sourceLine" id="cb314-12" data-line-number="12">    <span class="cf">return</span> <span class="op">{</span></a>
<a class="sourceLine" id="cb314-13" data-line-number="13">      <span class="dt">renderValue</span><span class="op">:</span> <span class="kw">function</span>(x) <span class="op">{</span></a>
<a class="sourceLine" id="cb314-14" data-line-number="14"></a>
<a class="sourceLine" id="cb314-15" data-line-number="15">        <span class="co">// parse gexf data</span></a>
<a class="sourceLine" id="cb314-16" data-line-number="16">        <span class="kw">var</span> parser <span class="op">=</span> <span class="kw">new</span> <span class="at">DOMParser</span>()<span class="op">;</span></a>
<a class="sourceLine" id="cb314-17" data-line-number="17">        <span class="kw">var</span> data <span class="op">=</span> <span class="va">parser</span>.<span class="at">parseFromString</span>(<span class="va">x</span>.<span class="at">data</span><span class="op">,</span> <span class="st">&quot;application/xml&quot;</span>)<span class="op">;</span></a>
<a class="sourceLine" id="cb314-18" data-line-number="18"></a>
<a class="sourceLine" id="cb314-19" data-line-number="19">        <span class="co">// apply settings</span></a>
<a class="sourceLine" id="cb314-20" data-line-number="20">        <span class="cf">for</span> (<span class="kw">var</span> name <span class="kw">in</span> <span class="va">x</span>.<span class="at">settings</span>)</a>
<a class="sourceLine" id="cb314-21" data-line-number="21">          <span class="va">sig</span>.<span class="at">settings</span>(name<span class="op">,</span> <span class="va">x</span>.<span class="at">settings</span>[name])<span class="op">;</span></a>
<a class="sourceLine" id="cb314-22" data-line-number="22"></a>
<a class="sourceLine" id="cb314-23" data-line-number="23">        <span class="co">// update the sigma object</span></a>
<a class="sourceLine" id="cb314-24" data-line-number="24">        <span class="va">sigma</span>.<span class="va">parsers</span>.<span class="at">gexf</span>(</a>
<a class="sourceLine" id="cb314-25" data-line-number="25">          data<span class="op">,</span>          <span class="co">// parsed gexf data</span></a>
<a class="sourceLine" id="cb314-26" data-line-number="26">          sig<span class="op">,</span>           <span class="co">// sigma object</span></a>
<a class="sourceLine" id="cb314-27" data-line-number="27">          <span class="kw">function</span>() <span class="op">{</span></a>
<a class="sourceLine" id="cb314-28" data-line-number="28">            <span class="co">// need to call refresh to reflect new settings</span></a>
<a class="sourceLine" id="cb314-29" data-line-number="29">            <span class="co">// and data</span></a>
<a class="sourceLine" id="cb314-30" data-line-number="30">            <span class="va">sig</span>.<span class="at">refresh</span>()<span class="op">;</span></a>
<a class="sourceLine" id="cb314-31" data-line-number="31">          <span class="op">}</span></a>
<a class="sourceLine" id="cb314-32" data-line-number="32">        )<span class="op">;</span></a>
<a class="sourceLine" id="cb314-33" data-line-number="33">      <span class="op">},</span></a>
<a class="sourceLine" id="cb314-34" data-line-number="34"></a>
<a class="sourceLine" id="cb314-35" data-line-number="35">      <span class="dt">resize</span><span class="op">:</span> <span class="kw">function</span>(width<span class="op">,</span> height) <span class="op">{</span></a>
<a class="sourceLine" id="cb314-36" data-line-number="36"></a>
<a class="sourceLine" id="cb314-37" data-line-number="37">        <span class="co">// forward resize on to sigma renderers</span></a>
<a class="sourceLine" id="cb314-38" data-line-number="38">        <span class="cf">for</span> (<span class="kw">var</span> name <span class="kw">in</span> <span class="va">sig</span>.<span class="at">renderers</span>)</a>
<a class="sourceLine" id="cb314-39" data-line-number="39">          <span class="va">sig</span>.<span class="at">renderers</span>[name].<span class="at">resize</span>(width<span class="op">,</span> height)<span class="op">;</span>  </a>
<a class="sourceLine" id="cb314-40" data-line-number="40">      <span class="op">},</span></a>
<a class="sourceLine" id="cb314-41" data-line-number="41"></a>
<a class="sourceLine" id="cb314-42" data-line-number="42">      <span class="co">// make the sigma object available as a property on the</span></a>
<a class="sourceLine" id="cb314-43" data-line-number="43">      <span class="co">// widget instance we are returning from factory(). This</span></a>
<a class="sourceLine" id="cb314-44" data-line-number="44">      <span class="co">// is generally a good idea for extensibility -- it helps</span></a>
<a class="sourceLine" id="cb314-45" data-line-number="45">      <span class="co">// users of this widget interact directly with sigma,</span></a>
<a class="sourceLine" id="cb314-46" data-line-number="46">      <span class="co">// if needed.</span></a>
<a class="sourceLine" id="cb314-47" data-line-number="47">      <span class="dt">s</span><span class="op">:</span> sig</a>
<a class="sourceLine" id="cb314-48" data-line-number="48">    <span class="op">};</span></a>
<a class="sourceLine" id="cb314-49" data-line-number="49">  <span class="op">}</span></a>
<a class="sourceLine" id="cb314-50" data-line-number="50"><span class="op">}</span>)<span class="op">;</span></a></code></pre></div>
<p>We provide a name and type for the widget, plus a <code>factory</code> function that takes <code>el</code> (the HTML element that will host this widget), <code>width</code>, and <code>height</code> (width and height of the HTML element, in pixels — you can always use <code>offsetWidth</code> and <code>offsetHeight</code> for this).</p>
<p>The <code>factory</code> function should prepare the HTML element to start receiving values. In this case, we create a new <code>sigma</code> element and pass it to the <code>id</code> of the DOM element that hosts the widget on the page.</p>
<p>We are going to need access to the <code>sigma</code> object later (to update its data and settings), so we save it as a variable <code>sig</code>. Note that variables declared directly inside of the <code>factory</code> function are tied to a particular widget instance (<code>el</code>).</p>
<p>The return value of the <code>factory</code> function is called a <em>widget instance object</em>. It is a bridge between the htmlwidgets runtime, and the JavaScript visualization that you are wrapping. As the name implies, each widget instance object is responsible for managing a single widget instance on a page.</p>
<p>The widget instance object you create must have one required method, and may have one optional method:</p>
<ol style="list-style-type: decimal">
<li><p>The required <code>renderValue</code> method actually pours our dynamic data and settings into the widget’s DOM element. The <code>x</code> parameter contains the widget data and settings. We parse and update the GEXF data, apply the settings to our previously-created <code>sig</code> object, and finally call <code>refresh</code> to reflect the new values on-screen. This method may be called repeatedly with different data (i.e., in Shiny), so be sure to account for that possibility. If it makes sense for your widget, consider making your visualization transition smoothly from one value of <code>x</code> to another.</p></li>
<li><p>The optional <code>resize</code> method is called whenever the element containing the widget is resized. The only reason not to implement this method is if your widget naturally scales (without additional JavaScript code needing to be invoked) when its element size changes. In the case of sigma.js, we forward the sizing information on to each of the underlying sigma renderers.</p></li>
</ol>
<p>All JavaScript libraries handle initialization, binding to DOM elements, dynamically updating data, and resizing slightly differently. Most of the work on the JavaScript side of creating widgets is mapping these three functions, <code>factory</code>, <code>renderValue</code>, and <code>resize</code>, correctly onto the behavior of the underlying library.</p>
<p>The sigma.js example uses a simple object literal to create its widget instance object, but you can also use <a href="https://developer.mozilla.org/en-US/docs/Web/JavaScript/Reference/Classes">class based objects</a> or any other style of object, as long as <code>obj.renderValue(x)</code> and <code>obj.resize(width, height)</code> can be invoked on it.</p>
<p>You can add additional methods and properties on the widget instance object. Although they will not be called by htmlwidgets itself, they might be useful to users of your widget that know some JavaScript and want to further customize your widget by adding custom JS code (e.g., using the R function <code>htmlwidgets::onRender()</code>). In this case, we add a property <code>s</code> to make the sigma object itself available.</p>
<div class="sourceCode" id="cb315"><pre class="sourceCode r"><code class="sourceCode r"><a class="sourceLine" id="cb315-1" data-line-number="1"><span class="kw">library</span>(sigma)</a>
<a class="sourceLine" id="cb315-2" data-line-number="2"><span class="kw">library</span>(htmlwidgets)</a>
<a class="sourceLine" id="cb315-3" data-line-number="3"><span class="kw">library</span>(magrittr)</a>
<a class="sourceLine" id="cb315-4" data-line-number="4">d =<span class="st"> </span><span class="kw">system.file</span>(<span class="st">&quot;examples/ediaspora.gexf.xml&quot;</span>, <span class="dt">package =</span> <span class="st">&quot;sigma&quot;</span>)</a>
<a class="sourceLine" id="cb315-5" data-line-number="5"><span class="kw">sigma</span>(d) <span class="op">%&gt;%</span><span class="st"> </span><span class="kw">onRender</span>(<span class="st">&quot;function(el, x) {</span></a>
<a class="sourceLine" id="cb315-6" data-line-number="6"><span class="st">  // this.s is the sigma object</span></a>
<a class="sourceLine" id="cb315-7" data-line-number="7"><span class="st">  console.log(this.s);</span></a>
<a class="sourceLine" id="cb315-8" data-line-number="8"><span class="st">}&quot;</span>)</a></code></pre></div>
</div>
<div id="demo" class="section level3">
<h3><span class="header-section-number">16.2.5</span> Demo</h3>
<p>Our widget is now complete! If you want to test drive it without reproducing all of the code locally you can install it from GitHub as follows:</p>
<div class="sourceCode" id="cb316"><pre class="sourceCode r"><code class="sourceCode r"><a class="sourceLine" id="cb316-1" data-line-number="1">devtools<span class="op">::</span><span class="kw">install_github</span>(<span class="st">&#39;jjallaire/sigma&#39;</span>)</a></code></pre></div>
<p>Here is the code to try it out with some sample data included with the package:</p>
<div class="sourceCode" id="cb317"><pre class="sourceCode r"><code class="sourceCode r"><a class="sourceLine" id="cb317-1" data-line-number="1"><span class="kw">library</span>(sigma)</a>
<a class="sourceLine" id="cb317-2" data-line-number="2"><span class="kw">sigma</span>(<span class="kw">system.file</span>(<span class="st">&quot;examples/ediaspora.gexf.xml&quot;</span>, <span class="dt">package =</span> <span class="st">&quot;sigma&quot;</span>))</a></code></pre></div>
<p>If you execute this code in the R console, you will see the widget displayed in the RStudio Viewer (or in an external browser if you are not running RStudio). If you include it within an R Markdown document, the widget will be embedded into the document.</p>
<p>We can also use the widget in a Shiny application:</p>
<div class="sourceCode" id="cb318"><pre class="sourceCode r"><code class="sourceCode r"><a class="sourceLine" id="cb318-1" data-line-number="1"><span class="kw">library</span>(shiny)</a>
<a class="sourceLine" id="cb318-2" data-line-number="2"><span class="kw">library</span>(sigma)</a>
<a class="sourceLine" id="cb318-3" data-line-number="3"></a>
<a class="sourceLine" id="cb318-4" data-line-number="4">gexf =<span class="st"> </span><span class="kw">system.file</span>(<span class="st">&quot;examples/ediaspora.gexf.xml&quot;</span>, <span class="dt">package =</span> <span class="st">&quot;sigma&quot;</span>)</a>
<a class="sourceLine" id="cb318-5" data-line-number="5"></a>
<a class="sourceLine" id="cb318-6" data-line-number="6">ui =<span class="st"> </span><span class="kw">shinyUI</span>(<span class="kw">fluidPage</span>(</a>
<a class="sourceLine" id="cb318-7" data-line-number="7">  <span class="kw">checkboxInput</span>(<span class="st">&quot;drawEdges&quot;</span>, <span class="st">&quot;Draw Edges&quot;</span>, <span class="dt">value =</span> <span class="ot">TRUE</span>),</a>
<a class="sourceLine" id="cb318-8" data-line-number="8">  <span class="kw">checkboxInput</span>(<span class="st">&quot;drawNodes&quot;</span>, <span class="st">&quot;Draw Nodes&quot;</span>, <span class="dt">value =</span> <span class="ot">TRUE</span>),</a>
<a class="sourceLine" id="cb318-9" data-line-number="9">  <span class="kw">sigmaOutput</span>(<span class="st">&#39;sigma&#39;</span>)</a>
<a class="sourceLine" id="cb318-10" data-line-number="10">))</a>
<a class="sourceLine" id="cb318-11" data-line-number="11"></a>
<a class="sourceLine" id="cb318-12" data-line-number="12">server =<span class="st"> </span><span class="cf">function</span>(input, output) {</a>
<a class="sourceLine" id="cb318-13" data-line-number="13">  output<span class="op">$</span>sigma =<span class="st"> </span><span class="kw">renderSigma</span>(</a>
<a class="sourceLine" id="cb318-14" data-line-number="14">    <span class="kw">sigma</span>(gexf,</a>
<a class="sourceLine" id="cb318-15" data-line-number="15">          <span class="dt">drawEdges =</span> input<span class="op">$</span>drawEdges,</a>
<a class="sourceLine" id="cb318-16" data-line-number="16">          <span class="dt">drawNodes =</span> input<span class="op">$</span>drawNodes)</a>
<a class="sourceLine" id="cb318-17" data-line-number="17">  )</a>
<a class="sourceLine" id="cb318-18" data-line-number="18">}</a>
<a class="sourceLine" id="cb318-19" data-line-number="19"></a>
<a class="sourceLine" id="cb318-20" data-line-number="20"><span class="kw">shinyApp</span>(<span class="dt">ui =</span> ui, <span class="dt">server =</span> server)</a></code></pre></div>
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